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Table 9 Pre-processed examples for the three tasks

From: Investigation of improving the pre-training and fine-tuning of BERT model for biomedical relation extraction

Task

Label

Sentence examples

PPI

Positive

Nuclear protein @PROTEIN$ is a coactivator for

the transcription factor @PROTEIN$.

Negative

Their order of selection was @PROTEIN$ effusion,

@PROTEIN$ serum, TNFalpha-effusion, and C3 effusion.

DDI

EFFECT

@DRUG$ may increase the ototoxic potential of other drugs

such as aminoglycoside and some @DRUG$.

MECHANISM

Cimetidine: @DRUG$ increases @DRUG$ plasma levels.

ChemProt

CPR:6

We conclude that @CHEMICAL$ and BAAM are competitive

slowly reversible @PROTEIN$ antagonists on rat left atria.

CPR:9

@PROTEIN$ plays a role in purine salvage by catalyzing the

direct conversion of adenine to @CHEMICAL$.